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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttctcccctcagattattgaattgtttttactttgatgatagagattctgaatttgtttctggtgtgatgtagTAAGCTTATAAATGTGGCGGTTCCTGGAACAATCGATGAACGAGCGATTAATACTAAGAGTATGCTTAATCCATGGGAGAGAAATGAAAATCATACGCTT

Basic information

species Arabidopsis thaliana
transcript AT5G48460.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G48460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G09360.1 (Glycine max), 3'ss of exon 3
gtaagcttctcccctcagattattgaattgtttttactttgatgataga---gattctgaatttgtttctggtgtgatgtagTAAGCTTATAAATGTGGCGGTTCCTGGAACAATCGATGAACGAGCGATTAATACTAAGAGTATGCTTAATCCATGGGAGAGAAATGAAAATCATACGCTT
     ||  ||   |    ||  |  | | |||  ||| |  |   |||    ||| | ||     ||      || || || |||||||| ||||| || ||||| || || ||||| ||||| ||||| ||||| || || || || ||||||||||| || ||||||||||| || |||
--gtactgttcattttcacttggtttactatttccactgttcttggagattttattttaaaaagagttacatgctgttgcagCAAGCTTATCAATGTAGCAGTTCCAGGGACCATCGACGAACGGGCGATCAATACAAAAAGAATACTCAATCCATGGGAAAGGAATGAAAATCACACACTT

upper sequence: AT5G48460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G45800.1 (Glycine max), 3'ss of exon 3
-----------gtaa-gcttctcccctcagattattgaat-tgtttttactttgatgatagagattctgaatttgtttctggtgtgatgtagTAAGCTTATAAATGTGGCGGTTCCTGGAACAATCGATGAACGAGCGATTAATACTAAGAGTATGCTTAATCCATGGGAGAGAAATGAAAATCATACGCTT
            ||  | || ||  || |  ||  ||  | ||   ||  |||        |  || | ||| ||  |    | || || ||||||||||| |||||||| |||||  | || || |||||||| ||||| ||||| || ||  | |||||||||||||| || |||||||| || || |||
gtactatacatttactgtttatcttcttatgttgctgtttatgacctttttttttcttctcattttttaaatatgaattacatttgttgcagTAAGCTTATTAATGTGGCAGTTCCAAGGACCATTGATGAACGGGCGATCAATACAAAAAGATTACTTAATCCATGGGAAAGGAATGAAAACCACACACTT

upper sequence: AT5G48460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s1365g00010.t01 (Vitis vinifera), 3'ss of exon 1
gtaagcttctcccctcagattattgaattgtttttactttgatgatagagattctgaatttgtttctggtgtgatgtagTAAGCTTATAAATGTGGCGGTTCCTGGAACAATCGATGAACGAGCGATTAATACTAAGAGTATGCTTAATCCATGGGAGAGAAATGAAAATCATACGCTT-
                                                                               |||||| || |||||||| ||||| |||||||| |||||||| || ||||| || |||||  | || ||||| |||||||| ||||||||||| || ||  
-------------------------------------------------------------------------------tAAGCTCATCAATGTGGCAGTTCCCGGAACAATTGATGAACGTGCCATTAACACGAAGAGAGTACTCAATCCTTGGGAGAGGAATGAAAATCACACCCTCT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|125087601|gb|EL146669.1|EL146669
EST:     CCGTCTTCGAATGATCTATTCGAAGTTGCAAAAGATGGTGTTTTGCTTTG                         TAAGCTTATAAATGTGGCGGTT
genomic: CCGTCTTCGAATGATCTATTCGAAGTTGCAAAAGATGGTGTTTTGCTTTGgtaagcttct ... tgtgatgtagTAAGCTTATAAATGTGGCGGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattgtttttactttgatgatagagattctgaatttgtttctggtgtgatgtagTAAGCTTATAAATGTGGCGGTTCCTGGAACAATCGATGAACGAGCGATTAATACTAAGAGTATGCTTAATCCATGGGAGAGAAATGAAAATCATACGCTT
            ctttgat  putative branch site (score: 5)
      tttttacttt  TA-rich tract